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Crystal structure of the bacterial A1408C-mutant ribosomal decoding site

Analyse Crystal structure of the bacterial A1408C-mutant ribosomal decoding site in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4P3T
Type: RNA
Length: 46 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(*UP*UP*GP*CP*GP*UP*CP*CP*CP*GP*(5BU) P*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3'
Pockets: 2 · best druggability 0.54

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	5'-D(UPUPGPCPGPUPCPCPCPGP(5BU) PCPGPAPCPGPAPAPGPUPCPGP*C)-3'	rna	23	—	—

Pockets

2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	428	0.54	0.73	27	empty
2	361	0.53	0.74	18	empty

Interfaces

1 interface between chains.

A–B · 983 Å² buried · 95 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 2 modified (nucleotide modification).

Compared structures

4P3T · Crystal structure of the bacterial A1408C-mutant ribosomal decoding site · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 4P3T · PDBe 4P3T

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